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        Note that additional data was saved in multiqc_data when this report was generated.


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        If you use plots from MultiQC in a publication or presentation, please cite:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

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        Tool Citations

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        About MultiQC

        This report was generated using MultiQC, version 1.25.1

        You can see a YouTube video describing how to use MultiQC reports here: https://youtu.be/qPbIlO_KWN0

        For more information about MultiQC, including other videos and extensive documentation, please visit http://multiqc.info

        You can report bugs, suggest improvements and find the source code for MultiQC on GitHub: https://github.com/MultiQC/MultiQC

        MultiQC is published in Bioinformatics:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

        A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.

        Report generated on 2024-10-28, 23:25 KST based on data in: /home/jiehoonk/repo/demo/out


        Because this report contains a lot of samples, you may need to click 'Show plot' to see some graphs.

        General Statistics

        Showing 0/3 rows and 1/2 columns.
        Sample NameInsert SizeMean Insert Size
        Blood_bqsr
        208bp
        227bp
        Svz_bqsr
        174bp
        179bp
        Tumor_bqsr
        171bp
        176bp

        GATK

        Wide variety of tools with a primary focus on variant discovery and genotyping.URL: https://www.broadinstitute.org/gatkDOI: 10.1101/201178; 10.1002/0471250953.bi1110s43; 10.1038/ng.806; 10.1101/gr.107524.110

        Observed Quality Scores

        This plot shows the distribution of base quality scores in each sample before and after base quality score recalibration (BQSR). Applying BQSR should broaden the distribution of base quality scores.

        For more information see the Broad's description of BQSR.

        Created with MultiQC

        Reported Quality vs. Empirical Quality

        Plot shows the reported quality score vs the empirical quality score.

        Created with MultiQC

        Picard

        Tools for manipulating high-throughput sequencing data.URL: http://broadinstitute.github.io/picard

        Alignment Summary

        Please note that Picard's read counts are divided by two for paired-end data. Total bases (including unaligned) is not provided.

        Created with MultiQC

        Mean read length

        The mean read length of the set of reads examined.

        Created with MultiQC

        Insert Size

        Plot shows the number of reads at a given insert size. Reads with different orientations are summed.

        Created with MultiQC